Csu pilus rod purified from Acinetobacter baumannii

2026-04-01 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY DATABASE_REFERENCES citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _citation_author.identifier_ORCID _em_admin.last_update EXPERIMENTAL_SUMMARY citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_CSD _citation.journal_id_ISSN _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _citation_author.identifier_ORCID _em_admin.last_update DATABASE_REFERENCES citation citation_author em_admin _citation.journal_volume _citation_author.identifier_ORCID _em_admin.last_update EXPERIMENTAL_SUMMARY citation citation_author em_admin _citation.journal_volume _citation_author.identifier_ORCID _em_admin.last_update PDBe PDBe 2025-01-22 2025-12-17 2025-12-17 2026-04-01 Academy of Finland 321762 Finland Academy of Finland 360760 Finland Sigrid Juselius Foundation 2023 Finland Csu pilus rod purified from Acinetobacter baumannii Malmi H Zavialov AV Pakharukova N pili, fimbriae, Acinetobacter baumannii pili, chaperone-usher pathway, archaic chaperone-usher pili, biofilm, 3D biofilm, adhesion, pathogenesis, CELL ADHESION Malmi H Pakharukova N Paul B Tuittila M Ahmad I Knight SD Uhlin BE Ghosal D Zavialov AV Antiparallel stacking of Csu pili drives Acinetobacter baumannii 3D biofilm assembly. Nat Commun UK 17 2026 41654547 doi:10.1038/s41467-026-68860-z 2041-1723 9i37 FULLOVERLAP PDB 7ZL4 unspecified

The earlier structure depicts a single pilus produced in Escherichia coli, whereas the new structure depicts a single pilus extracted from Acinetobacter baumannii.

EMDB EMD-52587 associated EM volume

Csu pilus rod Csu pilus rod 0 1

Csu pili extracted from Acinetobacter baumannii.

Acinetobacter baumannii 19096 Planktonic bacteria Outer membrane Outer membrane 16.05974 CsuA/B Acinetobacter baumannii 19096 bacterial surface 0.016069642

Polymer of subunit CsuA/B.

9 LEVO AVTGQVDVKLNISTGCTVGGSQTEGNMNKFGTLNFGKTSGTWNNVLTAEVASAATGGNISVTCDGTDPVDFTVAIDGGER TDRTLKNTASADVVAYNVYRDAARTNLYVVNQPQQFTTVSGQATAVPIFGAIAPNTGTPKAQGDYKDTLLVTVNF A0A6F8TDQ5 helical filament 7.4 20.0 C8H18N2O4S HEPES 125.0 NaCl sodium chloride

Sample is a fraction taken from an ion exchange column elution gradient, so the NaCl concentration may vary.

Quantifoil R1.2/1.3 GOLD 300 CARBON HOLEY 20.0 GLOW DISCHARGE 20 AIR ETHANE 100 277.15 FEI VITROBOT MARK IV

Extracted from the bacterial outer membrane.

TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 0.8 2.5 81000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GIF Bioquantum 20 GATAN K3 (6k x 4k) 1 54.8 1 27.606 -153.984 C1 3.28 FSC 0.143 CUT-OFF cryoSPARC v4.5.3 50502 cryoSPARC v4.5.3 Patch CTF Micrographs with CTF fit better than 3.5 A were used for filament picking. PHASE FLIPPING AND AMPLITUDE CORRECTION 189846 cryoSPARC v4.5.3 Filament Tracer NOT APPLICABLE emd_52587.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 223 62 61 22 119 121 61 62 223 64.3306 65.3852 235.1758 90.0 90.0 90.0 Z Y X -0.23220225 0.44279343 0.008393941 0.04146377 1.0546 1.0546 1.0546 0.075 AUTHOR ::::EMDATABANK.org::::EMD-52587:::: Csu pilus native rod helical structure map, sharpened, pixel spacing adjusted, cropped around the model 7ZL4 24-178 PDB experimental model

The initial model consisted of a single pilus rod fragment of the same type. The initial model in turn is based on a crystal structure of CsuA/Bsc with PDB accession code 6FM5.

RIGID BODY FIT

UCSF Chimera was used to fit the subunits into the map and adjust their relative angles, and it was also used to adjust map pixel spacing to match model dimensions. Coot was used to adjust side chain and loop positions. Phenix was used to fit the final version of the model into the stack map.

REAL 72.510000000000005 emd_52587_msk_1.map emd_52587_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 316.38 316.38 316.38 90.0 90.0 90.0 X Y Z -0.23220225 0.44279343 0.00016552141 0.010992795 1.0546 1.0546 1.0546 AUTHOR ::::EMDATABANK.org::::EMD-52587:::: Csu pilus native rod helical structure map, sharpened, pixel spacing adjusted, not cropped around the model emd_52587_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 316.38 316.38 316.38 90.0 90.0 90.0 X Y Z -0.17630213 0.24045205 0.00007518335 0.023226649 1.0546 1.0546 1.0546 AUTHOR ::::EMDATABANK.org::::EMD-52587:::: Csu pilus native rod helical structure map, half map A, pixel spacing adjusted emd_52587_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 300 300 300 0 0 0 300 300 300 316.38 316.38 316.38 90.0 90.0 90.0 X Y Z -0.18218994 0.23291636 0.000078846904 0.023233777 1.0546 1.0546 1.0546 AUTHOR ::::EMDATABANK.org::::EMD-52587:::: Csu pilus native rod helical structure map, half map B, pixel spacing adjusted